Transcriptional heterogeneity of catabolic genes on the plasmid pCAR1 causes host-specific carbazole degradation

• Published in: Applied and environmental microbiology 2024-02, Vol.90 (2), p.e0124723
• Main Authors: Suzuki-Minakuchi, Chiho, Yamamoto, Natsumi, Takahira, Saki, Yamaguchi, Masataka, Takeda, Yutaro, Okada, Kazunori, Shigeto, Shinsuke, Nojiri, Hideaki
• Format: Article
• Language: English
• Subjects: Bacteria; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Carbazole; Carbazoles; Carbazoles - metabolism; Catechol; Chromosomes; Degradation; Deuterium; Environmental Microbiology; Fluorescence; Heterogeneity; Operons; ortho-Aminobenzoates - metabolism; Plasmids - genetics; Promoter Regions, Genetic; Pseudomonas putida; Pseudomonas putida - genetics; Pseudomonas putida - metabolism; Raman spectra; Raman spectroscopy; Stochasticity; Transcription
• ISSN: 0099-2240; 1098-5336; 1098-5336
• DOI: 10.1128/aem.01247-23

To elucidate why plasmid-borne catabolic ability differs among host bacteria, we assessed the expression dynamics of the P promoter on the carbazole-degradative conjugative plasmid pCAR1 in KT2440(pCAR1) (hereafter, KTPC) and CA10. The P promoter regulates the transcription of both the and operons, which are responsible for converting carbazole into anthranilate and anthranilate into catechol, respectively. In the presence of anthranilate, transcription of the P promoter is induced by the AraC/XylS family regulator AntR, encoded on pCAR1. A reporter cassette containing the P promoter followed by was inserted into the chromosomes of KTPC and CA10. After adding anthranilate, GFP expression in the population of CA10 showed an unimodal distribution, whereas a small population with low GFP fluorescence intensity appeared for KTPC. CA10 has a gene, , that encodes an iso-functional homolog of AntR on its chromosome. When was disrupted, a small population with low GFP fluorescence intensity appeared. In contrast, overexpression of pCAR1-encoded AntR in KTPC resulted in unimodal expression under the P promoter. These results suggest that the expression of pCAR1-encoded AntR is insufficient to ameliorate the stochastic expression of the P promoter. Raman spectra of single cells collected using deuterium-labeled carbazole showed that the C-D Raman signal exhibited greater variability for KTPC than CA10. These results indicate that heterogeneity at the transcriptional level of the P promoter due to insufficient AntR availability causes fluctuations in the pCAR1-borne carbazole-degrading capacity of host bacterial cells.IMPORTANCEHorizontally acquired genes increase the competitiveness of host bacteria under selective conditions, although unregulated expression of foreign genes may impose fitness costs. The "appropriate" host for a plasmid is empirically known to maximize the expression of plasmid-borne traits. In the case of pCAR1-harboring strains, CA10 exhibits strong carbazole-degrading capacity, whereas KT2440 harboring pCAR1 exhibits low degradation capacity. Our results suggest that a chromosomally encoded transcription factor affects transcriptional and metabolic fluctuations in host cells, resulting in different carbazole-degrading capacities as a population. This study may provide a clue for determining appropriate hosts for a plasmid and for regulating the expression of plasmid-borne traits, such as the degradation of xenobiotics and antibiotic resistance.